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Matches in Nanopublications for { ?s ?p "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." ?g. }

• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.
• _4 value "Overexpression of Mad1 in primary thymocytes alters the expression of predominantly genes involved in controlling cellular growth. DN thymocytes from 6- to 9-week-old Mad1+/RAG2?/? or RAG2?/? mice. In an effort to minimize experimental variation, pairwise comparisons were made using Mad1/RAG-2?/? and RAG-2?/? sample pairs that were prepared and processed in parallel. For each of three comparison sets, data from Mu11Ksub A & B arrays were combined and an expression ratio (R) was calculated for individual genes/ESTs, where R = AveDiffMadRag/AveDiffRag. Data filtering and normalization were similar to those used by Coller et al. (2000). Genes/ESTs that the AMS algorithm called ?absent? in both MadRag and Rag sample pairs, or where |AveDiffMadRag ? AveDiffRag| ? 100, were filtered from further analysis. An exception was made for mad, where in two of three comparisons the high level of mad expression in the MadRag samples produced extensive saturation of the array probe signals, which resulted in an erroneous ?absent? call when the AMS gene-call algorithm was applied. Ratio values for each filtered data set were log2 transformed and normalized using mean = 0 and SD = 1. Genes/ESTs were considered significantly overexpressed in MadRag if R? 2 for each of the three pairwise comparisons. Likewise, genes/ESTs were considered underexpressed in MadRag if R? 0.5 for each of the three pairwise comparisons." provenance.